Showing : proteomics • reset
4
votes
3
replies
227
views
Differential protein/biomarker expression using limma: is that possible?
Proteomics NPX limma
updated 12 weeks ago by 43k • written 3 months ago by ▴ 10
5
votes
6
replies
307
views
limma:arrayWeights() and the "prior.n" parameter for biological replicates? (PROTEOMICS)
Proteomics limma StatisticalMethod
updated 3 months ago by 43k • written 3 months ago by ▴ 10
0
votes
0
replies
98
views
Limma design multi-level experiment with 3 time points
R proteomics limma
3 months ago ellen2270 • 0
0
votes
4
replies
170
views
DEP - Run filter_missval() with a threshold ranging from 0 to 3
proteomics DEP
3 months ago rina ▴ 20
0
votes
0
replies
122
views
Job: Tenure-track Group Leader Position in Computational Biology
bioinformatics sequencing barcelona proteomics
4 months ago Robert Castelo ★ 2.7k
2
votes
1
reply
190
views
Convert UniProt Entry Names into Gene Symbols
Proteomics ProteomicsWorkflow UniProt.ws
updated 4 months ago by 57k • written 4 months ago by ★ 1.5k
0
votes
0
replies
206
views
Job: Proteomics Bioinformatician
JobPosting Proteomics Statistics Job
5 months ago Laura • 0
1
vote
2
replies
159
views
calculate theoretical isotope distribution give the AA sequence
Metabolomics proteomics MassSpectrometry
6 months ago Oliver • 0
0
votes
3
replies
146
views
Why I can not install rTANDEM?
MassSpectrometry Proteomics mzR
6 months ago Gilad • 0
1
vote
2
replies
167
views
error in installation of 'org.Hs.eg.db'
proteomics GenomicSequence
updated 6 months ago by ▴ 40 • written 6 months ago by • 0
5
votes
6
replies
286
views
possible package naming conflict
proteomics
6 months ago Tobias ▴ 30
1
vote
0
replies
126
views
News: Online training - Proteomics in R and Bioconductor
ProteomicsWorkflow proteomics Proteome
6 months ago info ▴ 10
0
votes
0
replies
87
views
Which software can work withThermo ProteomeDiscover software output?
ProteomicsWorkflow proteomics proteinProfiles
6 months ago yueli7 ▴ 10
0
votes
1
reply
149
views
R package to change protein *.msf file to any readable file
Proteome ProteomicsWorkflow proteomics
updated 6 months ago by ▴ 780 • written 6 months ago by ▴ 10
0
votes
0
replies
152
views
Job: Data Scientist Proteomics (100%), Biozentrum, University of Basel, Switzerland
Switzerland JobPosting Basel Proteomics
7 months ago Robert Ivanek ▴ 670
0
votes
3
replies
264
views
Find DEPs among TMT labeling proteom time course data by limma
limma proteomics TMTlabeling timecoursedata
updated 7 months ago by ▴ 270 • written 7 months ago by • 0
3
votes
0
replies
299
views
Tutorial: Mass Spectrometry Data Analysis with the Spectra Package
mass spectrometry proteomics metabolomics Tutorial
8 months ago Johannes Rainer ★ 1.9k
2
votes
0
replies
157
views
Job: PostDoc position for the analysis of large scale metabolomics data
metabolomics proteomics Job
9 months ago Johannes Rainer ★ 1.9k
1
vote
6
replies
443
views
DEP package: Problems installing on macOS
software error DEP proteomics
updated 11 months ago by 1.5k • written 11 months ago by • 0
0
votes
0
replies
438
views
Job: Research software engineer at the de Duve Institute, UCLouvain (Brussels, Belgium)
software engineer RNASeq proteomics Job visualisation
12 months ago Laurent Gatto 1.5k
0
votes
0
replies
91
views
How to generate custom MS database using CustomProDB?
r proteomics
13 months ago nattzy94 • 0
2
votes
1
reply
177
views
Maximum parsimony protein assembly/inference
rforproteomics proteomics msnid msnbase
14 months ago daniel.magnus.bader ▴ 40
2
votes
1
reply
146
views
Multiple protein ids issue- which protein IDs should be selected for downstream analysis?
Proteomics enrichment Perseus
15 months ago harelarik ▴ 50
1
vote
0
replies
155
views
News: News: Bioinformatics Summer School - July 2020 - UCLouvain (Belgium)
rnaseq course proteomics transcriptomics scrnaseq News
16 months ago Laurent Gatto 1.5k
1
vote
2
replies
357
views
Proteomics: package/statistics to compare very different LFQ-proteomes
dep proteomics limma
17 months ago Rob • 0
0
votes
0
replies
205
views
Job: Bioinformatician Positions at the University of Chicago BSD Bioinformatics Core
RNA-seq DNA-seq ATAC-seq proteomics microbiome Job
17 months ago lhuang7 ▴ 50
3
votes
0
replies
1.4k
views
Job: Postdoctoral Scientist, Statistical Bioinformatics and Proteomics, WEHI Australia
job proteomics Job statistics
19 months ago • updated 17 months ago Gordon Smyth 43k
0
votes
0
replies
259
views
News: May Institute Computation and statistics for mass spectrometry and proteomics
conference mass spectrometry proteomics News
18 months ago shepherl 2.7k
0
votes
0
replies
323
views
News: course - Protemics with R and Bioconductor - 17-19 February 2020 in Berlin
Bioconductor R Proteomics News
19 months ago info ▴ 10
0
votes
0
replies
144
views
proteoQC throwing error after running
ProteoQC Proteomics
19 months ago laural710 • 0
0
votes
2
replies
359
views
Total Area Sum Intensity based Normalization for label-free quantitative proteomics
normalization proteomics label-free
19 months ago amolares • 0
0
votes
3
replies
290
views
Writing a loop through multiple fasta files and named files (is it possible with MSGFplus?)
MSGF+ Proteomics r
updated 20 months ago by 25k • written 20 months ago by • 0
0
votes
0
replies
150
views
DEP package - Understanding the results table
dep proteomics logFC
20 months ago rina ▴ 20
0
votes
0
replies
225
views
DEP: TMT analysis from MaxQuant output
DEP TMT proteomics
21 months ago • updated 20 months ago dparrine • 0
2
votes
0
replies
1.6k
views
Job: Bioconductor infrastructure for the integration of genomics, transcriptomics and proteomics data
proteomics genomics transcriptomics software Job
21 months ago Laurent Gatto 1.5k
0
votes
0
replies
212
views
News: Protemics with R and Bioconductor course in Berlin
R Proteomics News
21 months ago info ▴ 10
0
votes
0
replies
245
views
Proteomics data analysis with DEP no replicates
DEP Proteomics Statistics limma
22 months ago tatabox • 0
0
votes
8
replies
1.1k
views
Getting data into (and out of) the MSnSet object
proteomics MSnbase MSnSet readMSnSet msmsTests
updated 22 months ago by • 0 • written 3.4 years ago by ▴ 20
3
votes
3
replies
380
views
Clarification of results tables in DEP
DEP proteomics
updated 22 months ago by ▴ 70 • written 23 months ago by ▴ 480
1
vote
3
replies
348
views
Interpreting Fold Change Calculation in Limma to Non-Statisticians: Sanity Check
Limma proteomics limma
updated 2.1 years ago by • 0 • written 2.1 years ago by • 0
2
votes
2
replies
286
views
Where can I get functional bins for Arabidopsis thaliana genome (AGIs)
r proteomics RNA-Seq
updated 2.2 years ago by ▴ 180 • written 2.2 years ago by ▴ 10
0
votes
0
replies
246
views
How to integrate and visualize RNASeq / Proteomics data for metabolomics pathways?
r metabolomics KEGG Proteomics Transcriptomics
2.2 years ago Wuschel ▴ 10
0
votes
2
replies
319
views
Comparative proteome analysis of two different species
proteomics LC-MS/MS
updated 2.2 years ago by 1.5k • written 2.2 years ago by • 0
1
vote
0
replies
979
views
Job: Full time and permanent research logistician in Bioinformatics
transcriptomics proteomics job bioinformatician Job
2.3 years ago • updated 2.2 years ago Laurent Gatto 1.5k
1
vote
2
replies
271
views
Errors installing "shinyTANDEM" package
software error proteomics
updated 2.3 years ago by 1.5k • written 2.3 years ago by • 0
1
vote
2
replies
635
views
Errors installing mzR package
proteomics error
updated 2.3 years ago by 1.5k • written 2.3 years ago by • 0
1
vote
0
replies
734
views
News: Bioinformatics Summer School - July 2019 - UCLouvain (Belgium)
RNAseq deseq2 proteomics transcriptomics workshop News
2.3 years ago Laurent Gatto 1.5k
4
votes
5
replies
516
views
How to convert a xlsx data file to MSnSet format?
msnbase msmstests proteomics lc-ms/ms msnID
updated 2.3 years ago by 1.5k • written 2.4 years ago by ▴ 10
0
votes
3
replies
314
views
What does component or SCX classification in iTRAQ/TMT experiment represent?
proteomics
updated 2.6 years ago by 1.5k • written 2.6 years ago by • 0
1
vote
1
reply
502
views
Define batch effect variables before removing them or getting rid of hidden surrogate variables
batch effect correction sva proteomics
2.6 years ago Sebastian Hesse ▴ 50
50 results • Page 1 of 1
Recent ...
Replies
Comment: Determining number of genes in each module based on color in WGCNA package by schum266 • 0
For anyone who might be interested. I was able to figure this out. It's very easy.... just set numericLabels = FALSE. (*sigh*) ``` net = …
Comment: Research fellow in immunology by ATpoint ▴ 640
Try starting a new R session and then load the package again. If that fails then manually install ellipsis version 0.3.2 or greater. By the…
Answer: Creating the correct model to account for paired-samples (patient-effect) help n by Gordon Smyth 43k
In the limma User's Guide, Section 9.4.1 *Paired Samples* covers paired designs. In the edgeR User's Guide, it is Section 3.4.1.
Comment: How to convert .CEL file to .VCF file? by jesus • 0
Thank you! I'd already seen it, but the problem is that I'm using Windows and I think that code is only for Linux. Thanks anyway!
Comment: DESeq2 codes by Ram ▴ 60
DESeq2 is a piece of software that can be used to find statistically significant differential expression in RNAseq datasets. See: https://b…
Votes
Comment: What is the correct use of removeBatchEffect's design parameter
Answer: DESeq2 for allele-specific expression with contrasts between conditions
C: DESeq2 question about use of DESeqDataSetFromTximport() from RSEM data
Comment: Data input for aracne2regulon function in viper package
Comment: DESeq2: NA's in mcols(object)$betaConv
Awards • All
Popular Question to Gordon Smyth 43k
Popular Question to tcalvo ▴ 40
Popular Question to Malcolm Cook ★ 1.5k
Popular Question to Keith Hughitt ▴ 140
Scholar to Aaron Lun ★ 26k
Locations • All
United States, 37 minutes ago
WEHI, Melbourne, Australia, 56 minutes ago
The city by the bay, 58 minutes ago
San Diego, 1 hour ago
EMBL Heidelberg / de.NBI, 1 hour ago
Traffic: 277 users visited in the last hour
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6